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Experiment ID GSE6893
Experiment Title Expression data for reproductive development in rice
Number of Samples 45
Organism(s) Oryza sativa
Summary Plants initially undergo a period of vegetative development, in which it produces leaves from shoot apical meristem (SAM) and roots from the root apical meristem. Later in development, the SAM undergoes a change in fate and enters reproductive development called as floral transition, producing flowers and seeds. Our understanding of the molecular and genetic mechanisms that underlie reproductive development in plants has increased tremendously in the past decade, essentially through the work on Arabidopsis. In this study, we have analyzed the spatial and temporal gene expression in various tissues/organs and developmental stages of rice using microarray technology to identify the genes differentially expressed during various stages of reproductive development.
Keywords: Development time course
Overall design Various rice tissues/organs (seedling root, mature leaf and Y leaf) and stages of reproductive (panicle and seed) development were used for RNA extraction and hybridization on Affymetrix microarrays. Three biological replicates of each sample were used for microarray analysis. We sought to obtain developmental and temporal gene expression profiles at each stage to identify the differentially expressed genes. Different stages of panicle and seed development have been categorized according to panicle length and days after pollination, respectively, based on landmark developmental events as follows: up to 0.5 mm, shoot apical meristem and rachis meristem (SAM); 0-3 cm, floral transition and floral organ development (P1); 3-10 cm, meiotic stage (P2 and P3); 10-15 cm, young microspore stage (P4); 15-22 cm, vacuolated pollen stage (P5); 22-30 cm, mature pollen stage (P6); 0-2 dap, early globular embryo (S1); 3-4 dap, middle and late globular embryo (S2); 5-10 dap, embryo morphogenesis (S3); 11-20 dap, embryo maturation (S4); 21-29, dormancy and desiccation tolerance (S5). These stage specifications are approximations based on information from Itoh et al., 2005, Plant Cell Physiol, 46, 23-47.
Contributor(s) Kapoor S,Tyagi AK,Khurana JP,Arora R,Agarwal P,Nijhawan A,Sharma P,Jain M
Citation(s) 17293439,19490110
 
Submission date 29-Jan-07
Contact name Sanjay Kapoor
E-mail(s) kapoors@genomeindia.org
Phone
Fax 91 11 24119430
URL
Organization name University of Delhi South Campus
Department Department of Plant Molecular Biology
Lab
Street address Benito Juarez Road
City New Delhi
State/province Delhi
ZIP/Postal code 110021
Country India

  ID Platform Sample Name
1. GSM159177 Affymetrix Root, 7-day-old Seedling, biological rep 1
2. GSM159178 Affymetrix Root, 7-day-old Seedling, biological rep 2
3. GSM159179 Affymetrix Root, 7-day-old Seedling, biological rep 3
4. GSM159180 Affymetrix Mature leaf, biological rep 1
5. GSM159181 Affymetrix Mature leaf, biological rep 2
6. GSM159182 Affymetrix Mature leaf, biological rep 3
7. GSM159183 Affymetrix Y Leaf, biological rep 1
8. GSM159184 Affymetrix Y Leaf, biological rep 2
9. GSM159185 Affymetrix Y Leaf, biological rep 3
10. GSM159186 Affymetrix SAM, biological rep 1
11. GSM159187 Affymetrix SAM, biological rep 2
12. GSM159188 Affymetrix SAM, biological rep 3
13. GSM159189 Affymetrix Young inflorescence (P1, upto 3 cm), biological rep 1
14. GSM159190 Affymetrix Young inflorescence (P1, upto 3 cm), biological rep 2
15. GSM159191 Affymetrix Young inflorescence (P1, upto 3 cm), biological rep 3
16. GSM159192 Affymetrix Inflorescence (P2, 3 - 5 cm), biological rep 1
17. GSM159193 Affymetrix Inflorescence (P2, 3 - 5 cm), biological rep 2
18. GSM159194 Affymetrix Inflorescence (P2, 3 - 5 cm), biological rep 3
19. GSM159195 Affymetrix Inflorescence (P3, 5 - 10 cm), biological rep 1
20. GSM159196 Affymetrix Inflorescence (P3, 5 - 10 cm), biological rep 2
21. GSM159197 Affymetrix Inflorescence (P3, 5 - 10 cm), biological rep 3
22. GSM159198 Affymetrix Inflorescence (P4, 10 - 15 cm), biological rep 1
23. GSM159199 Affymetrix Inflorescence (P4, 10 - 15 cm), biological rep 2
24. GSM159200 Affymetrix Inflorescence (P4, 10 - 15 cm), biological rep 3
25. GSM159201 Affymetrix Inflorescence (P5, 15 - 22 cm), biological rep 1
26. GSM159202 Affymetrix Inflorescence (P5, 15 - 22 cm), biological rep 2
27. GSM159203 Affymetrix Inflorescence (P5, 15 - 22 cm), biological rep 3
28. GSM159204 Affymetrix Inflorescence (P6, 22 - 30 cm), biological rep 1
29. GSM159205 Affymetrix Inflorescence (P6, 22 - 30 cm), biological rep 2
30. GSM159206 Affymetrix Inflorescence (P6, 22 - 30 cm), biological rep 3
31. GSM159207 Affymetrix Seed (S1, 0 - 2 dap), biological rep 1
32. GSM159208 Affymetrix Seed (S1, 0 - 2 dap), biological rep 2
33. GSM159209 Affymetrix Seed (S1, 0 - 2 dap), biological rep 3
34. GSM159210 Affymetrix Seed (S2, 3 - 4 dap), biological rep 1
35. GSM159211 Affymetrix Seed (S2, 3 - 4 dap), biological rep 2
36. GSM159212 Affymetrix Seed (S2, 3 - 4 dap), biological rep 3
37. GSM159213 Affymetrix Seed (S3, 5 - 10 dap), biological rep 1
38. GSM159214 Affymetrix Seed (S3, 5 - 10 dap), biological rep 2
39. GSM159215 Affymetrix Seed (S3, 5 - 10 dap), biological rep 3
40. GSM159216 Affymetrix Seed (S4, 11 - 20 dap), biological rep 1
41. GSM159217 Affymetrix Seed (S4, 11 - 20 dap), biological rep 2
42. GSM159218 Affymetrix Seed (S4, 11 - 20 dap), biological rep 3
43. GSM159219 Affymetrix Seed (S5, 21 - 29 dap), biological rep 1
44. GSM159220 Affymetrix Seed (S5, 21 - 29 dap), biological rep 2
45. GSM159221 Affymetrix Seed (S5, 21 - 29 dap), biological rep 3


Available Data:
Platforms: 5
Experiments: 68
Hybridations: 1378


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